genome.fa.s20.2.7.7.80.10.50.1000.145.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Gbar_D07
Parameters: 2 7 7 80 10 50 1000
Length:  56457815

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   

This is table  145  of  189  ( 22580 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44156545--44156576	17	2.0	17	88	11	50	28	40	12	18	1.87
44157937--44157977	22	1.9	21	85	5	55	53	7	0	39	1.29
44157940--44158012	29	2.5	29	80	8	85	60	5	1	32	1.28
44158222--44158279	27	2.2	26	78	9	64	62	5	3	29	1.33
44159505--44159555	23	2.2	23	85	0	75	29	0	1	68	1.00
44160191--44160222	2	16.0	2	100	0	64	50	0	0	50	1.00
44160629--44160673	20	2.2	20	80	7	56	62	2	0	35	1.08
44160645--44160696	27	1.9	27	88	7	79	63	3	0	32	1.12
44161410--44161485	31	2.4	32	91	2	127	32	7	13	46	1.72
44161411--44161509	31	3.2	31	84	4	83	34	7	15	43	1.73
44161638--44161705	27	2.3	29	78	14	77	30	8	14	45	1.76
44167444--44167603	68	2.3	69	84	7	202	25	8	23	42	1.81
44168072--44168266	20	9.7	20	70	5	124	38	7	14	38	1.75
44168069--44168259	101	1.9	101	86	2	276	39	8	15	36	1.77
44168082--44168259	61	2.9	61	77	10	166	39	8	15	36	1.77
44168150--44168282	40	3.3	39	82	7	117	38	8	15	37	1.78
44168295--44168513	112	1.9	112	82	2	269	39	16	13	29	1.88
44168320--44168564	112	2.2	112	82	3	305	37	17	13	31	1.88
44168770--44168818	26	1.9	25	83	4	62	44	2	2	51	1.24
44168814--44168869	21	2.7	21	69	20	53	33	3	5	57	1.39
44172327--44172441	43	2.7	43	84	12	164	35	27	16	20	1.94
44175291--44175340	18	2.5	20	81	18	61	2	16	2	80	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44175703--44175818	36	3.2	35	72	10	99	20	18	34	25	1.96
44176494--44176587	33	2.8	32	76	7	98	32	10	14	41	1.81
44179377--44179438	25	2.5	24	79	12	63	4	12	4	77	1.09
44179440--44179494	19	3.0	19	81	5	51	45	3	0	50	1.19
44183121--44183148	3	9.3	3	100	0	56	0	32	0	67	0.91
44184471--44184504	17	1.9	18	88	5	52	0	35	0	64	0.94
44184462--44184524	25	2.6	24	83	11	83	0	30	0	69	0.88
44188367--44188436	21	3.4	21	72	18	67	37	1	8	52	1.41
44188453--44188498	18	2.6	18	86	3	58	43	0	2	54	1.12
44188475--44188663	59	3.2	59	71	19	201	38	0	4	56	1.25
44188366--44188684	41	8.0	39	68	17	160	39	1	5	53	1.32
44188401--44188752	120	3.0	120	95	1	629	40	1	4	53	1.30
44188419--44188789	55	6.3	59	69	20	235	41	1	4	52	1.30
44188977--44189007	16	1.9	16	93	0	53	25	32	0	41	1.56
44195604--44195638	17	2.1	17	89	10	54	74	2	22	0	0.95
44200871--44200931	26	2.3	26	86	10	81	47	11	11	29	1.75
44208181--44208217	9	4.1	9	89	0	56	48	13	8	29	1.71
44209041--44209077	19	1.9	19	88	0	56	35	5	24	35	1.78
44212311--44212380	7	10.0	7	74	0	50	15	0	38	45	1.47
44212311--44212380	28	2.5	29	81	6	90	15	0	38	45	1.47
44212341--44212380	21	1.9	21	89	0	62	17	0	37	45	1.49
44212796--44212854	16	3.7	16	80	6	66	64	3	6	25	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44213171--44213230	24	2.5	24	76	10	61	30	43	3	23	1.70
44215496--44216191	9	78.2	9	68	23	200	46	13	0	39	1.46
44215478--44216003	31	16.3	31	79	14	495	47	12	0	39	1.43
44215486--44215940	34	13.7	34	74	18	276	47	12	0	40	1.43
44215496--44216193	25	26.9	25	71	20	153	46	13	0	39	1.46
44215618--44215730	22	5.4	22	73	20	100	49	10	0	39	1.37
44215957--44216036	41	2.0	41	82	5	99	42	13	0	43	1.44
44215834--44216080	34	7.4	34	74	16	182	44	13	0	42	1.43
44216067--44216186	16	7.9	16	69	19	96	45	17	1	35	1.58
44218066--44218134	21	3.3	21	79	0	75	37	18	40	2	1.66
44218580--44218788	42	5.0	42	90	5	316	23	24	21	30	1.99
44218580--44218788	85	2.5	85	91	2	332	23	24	21	30	1.99
44219370--44219394	6	4.2	6	100	0	50	68	0	0	32	0.90
44219626--44219677	25	2.1	25	81	0	59	55	9	7	26	1.59
44224175--44224245	21	3.4	21	78	7	81	5	43	16	33	1.72
44228807--44228850	23	1.9	23	86	9	63	56	6	2	34	1.38
44228120--44229040	389	2.4	383	89	4	1395	42	22	4	30	1.75
44229689--44229856	84	2.0	84	92	0	282	35	27	20	15	1.93
44229609--44230024	198	2.1	198	90	1	654	33	26	20	19	1.97
44230010--44230386	84	4.4	84	92	1	601	34	27	19	18	1.95
44229886--44230386	168	3.0	168	90	4	759	35	26	19	17	1.95
44234587--44234702	25	4.6	25	72	16	78	42	3	0	54	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44234604--44234669	20	3.2	20	74	17	73	45	3	0	51	1.16
44234600--44234662	10	6.2	10	79	17	76	46	3	0	50	1.17
44234583--44234673	5	17.6	5	70	17	53	42	3	0	53	1.17
44237124--44237185	8	7.4	9	78	14	55	29	0	1	69	0.98
44241873--44241935	29	2.2	29	88	0	90	19	31	28	20	1.97
44241883--44241945	29	2.2	29	85	0	81	17	25	31	25	1.97
44242415--44242450	17	2.1	18	89	5	56	11	36	33	19	1.87
44243909--44243978	25	2.8	25	77	12	72	28	10	17	44	1.81
44254455--44254638	51	3.7	49	81	6	217	26	17	25	30	1.98
44254638--44254848	84	2.5	84	95	0	368	22	17	24	36	1.95
44254638--44254889	42	6.0	42	78	8	242	22	16	25	35	1.95
44258611--44258806	50	3.8	50	80	6	178	27	20	27	23	1.99
44264956--44265202	50	4.8	50	81	8	241	28	21	27	22	1.99
44275481--44275512	11	2.9	11	90	0	55	25	18	9	46	1.79
44277693--44277735	17	2.5	17	84	0	50	34	4	25	34	1.77
44277715--44277763	23	2.1	24	92	7	84	28	4	16	51	1.63
44280577--44280618	13	2.9	14	80	13	50	54	0	0	45	0.99
44280581--44280617	16	2.3	16	86	13	58	59	0	0	40	0.97
44281935--44281978	15	3.2	13	81	15	52	77	2	2	18	0.98
44281939--44281985	22	2.1	22	88	4	67	76	4	2	17	1.04
44282093--44282140	16	3.2	15	85	8	62	60	0	12	27	1.32
44283840--44284115	44	6.0	43	70	12	149	28	21	18	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44283906--44284113	44	4.5	44	71	13	166	31	20	17	30	1.96
44283749--44284121	142	2.6	143	84	1	480	28	21	18	31	1.97
44296639--44296833	105	1.9	104	85	3	275	24	22	31	21	1.98
44308606--44308669	21	2.9	21	73	15	58	46	6	3	43	1.44
44314231--44314277	19	2.5	19	86	6	60	25	21	10	42	1.85
44329801--44329989	41	4.6	41	86	2	263	31	19	22	26	1.97
44329966--44330015	26	1.9	26	95	0	91	18	22	34	26	1.96
44329995--44330140	42	3.5	42	79	8	145	22	18	24	34	1.96
44333676--44333723	25	2.0	24	84	12	62	39	4	0	56	1.19
44336384--44336425	19	2.2	20	82	4	50	30	7	11	50	1.66
44348483--44348667	44	4.2	44	64	13	110	29	21	24	25	1.99
44348107--44348758	132	4.9	132	93	0	1106	30	20	24	24	1.99
44350374--44350428	25	2.1	26	87	12	78	29	0	3	67	1.08
44350856--44350897	19	2.2	20	86	4	59	33	7	9	50	1.62
44354068--44354094	12	2.2	12	100	0	54	70	0	14	14	1.17
44355466--44355547	3	27.3	3	97	0	155	67	0	31	1	0.99
44372160--44372186	14	1.9	14	100	0	54	51	0	0	48	1.00
44372265--44372318	13	4.2	13	80	7	56	53	0	0	46	1.00
44372261--44372315	22	2.4	23	82	11	78	50	0	0	49	1.00
44372261--44372299	9	4.1	9	83	9	51	48	0	0	51	1.00
44373424--44373457	7	5.0	7	85	7	52	52	0	0	47	1.00
44373424--44373457	13	2.5	14	85	9	52	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44378799--44378840	21	2.0	22	90	4	68	38	0	4	57	1.20
44386044--44386470	9	48.3	9	65	20	138	32	1	18	48	1.56
44386073--44386197	25	4.9	25	78	7	110	32	1	19	47	1.59
44386088--44386444	16	21.9	16	67	21	149	31	1	18	49	1.56
44386044--44386168	34	3.7	34	82	5	137	35	0	17	46	1.54
44386044--44386197	34	4.5	34	79	7	127	33	1	18	46	1.58
44386232--44386314	20	4.0	20	77	13	87	28	0	16	54	1.43
44386288--44386352	28	2.3	29	89	2	96	26	0	21	52	1.47
44386367--44386444	34	2.2	36	84	4	106	32	1	17	48	1.56
44386593--44386681	18	4.8	18	79	14	101	43	1	11	43	1.47

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189